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About this document

This is an official Request for Comment (RFC) for a a new icon set in Cytoscape 2.4.

For details on RFCs in general, check out the Wikipedia Entry: Request for Comments (RFCs)


{*} This RFC is now officially closed to public comment, as the new icons are now part of Cytoscape 2.4.


I'd like to propose that Cytoscape 2.4 adopt a new, more intuitive set of icons for the main tool bar. The current set of icons is not very intuitive, and a number of users find them very confusing.

As part of this RFC, I have explored a number of icon options:

After evaluating the above options, I stumbled upon the Open Office Icon set. More specifically, the Ximiam-themed Open Office Icon set.

I'd like to propose that we adopt this icon set for Cytoscape 2.4. Here are the major reasons for doing so:

For reference, here is the current Cytoscape toolbar:


And, here is the proposed tool bar with the Ximiam Open Office Icons:


A few things to note:

Deferred Items

None defined yet.


EthanCerami, 07/19/2006 - Sample comment to get things started... Love the new icons! Blah, blah, blah...

BennoSchwikowski, 07/20/2006 - Bravo! Love the new icons, Ethan. --Benno

MikeSmoot, 07/20/2006 - I think the new icons look fine and would be happy to have our current ones replaced. I am, however, a little biased against bitmap graphics used for icons. A quick search for "Java SVG icons" turned up this link: http://forums.java.net/jive/thread.jspa?threadID=7504&start=0&tstart=0 which I thought was pretty interesting. It might be worth paying someone to create the few missing icons we'd need for Tango and donate them to the project. Scooter might have some ideas on SVG as well since I know he is pretty involved with that in Mozilla.

Trey Ideker 7/21/2006 - Looking good. The one nice thing about the old icons is they were very colorful. Would you be willing to add back in some color (or at least see what it looks like). Also, while you are at it there must be many other functions accessible through the menu systems which should also be on the toolbar (e.g., import network).

All icons available are listed here

CytoscapeIcons (last edited 2009-02-12 01:03:33 by localhost)

Funding for Cytoscape is provided by a federal grant from the U.S. National Institute of General Medical Sciences (NIGMS) of the Na tional Institutes of Health (NIH) under award number GM070743-01. Corporate funding is provided through a contract from Unilever PLC.

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